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mmu_circPaip1_725
Basic information of circular RNA
PanCircBase ID:
mmu_circPaip1_725
mm39_Chr. Position ID:
chr13|119577294|119592325|+
Gene name:
Paip1
Transcript:
ENSMUST00000109203.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
4,5,6,7,8,9,10
Exon/intron offsets:
0,4978,6956,9145,9937,11033,14937
Genomic length:
15031
Exon/intron sizes in nt:
113,112,126,107,118,55,94
Flanking exon/introns:
chr13:119574690-119577294|chr13:119592325-119593523
Splice length:
725
Other database IDs:
circAtlas: hsa-PAIP1_0008
Human Ortholog IDs:
Mature spliced Sequence:
GCCACGTCTATCCCAAATTTCTCTTACATGGGAGCTCGCCTGTGTAATTACCTGTCCCATCATCTGACAATTAGTCCACAGAGTGGCAACTTCCGCCAATTGCTACTTCAAAGGTGCAGGACGGAGTATGAAGCTAAAGACCAAGCTGCAAAAGGGGATGAAGTGACTCGAAAACGATTTCATGCATTTGTTCTGTTTCTGGGAGAACTATATCTTAACCTGGAGATTAAAGGAACAAATGGACAAGTTACAAGAGCAGATATTCTTCAGGTTGGTCTTCGGGAACTGCTGAATGCTCTGTTTTCTAATCCTATGGATGACAACTTAATTTGTGCAGTAAAATTGCTAAAGTTGACAGGATCAGTTTTAGAAGATACTTGGAAGGAAAAGGGGAAAACTGATATGGAAGAAATAATTCAGAGAATTGAAAATGTTGTCCTAGATGCAAACTGCAGCAGAGATGTAAAACAGATGCTCTTGAAGCTTGTTGAACTTCGATCAAGTAACTGGGGTAGGGTCCATGCAACTTCAACATACAGAGAAGCTACCCCTGAAAATGACCCTAATTACTTCATGAATGAACCAACATTTTATACATCTGATGGTGTTCCTTTCACTGCAGCGGACCCAGATTACCAAGAAAAGTATCAAGAGTTACTTGAAAGAGAGGACTTTTTTCCAGATTATGAAGAAAATGGAACAGATTTATCAGGGGCTGGTGACCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCAGATTACCAAGAAAAGTATCA
57.97
AATTACACAGGCGAGCTCCC
60.11
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCAGATTACCAAGAAAAGTATCA
57.97
GGCGAGCTCCCATGTAAGAG
60.25
140
PCR template sequence:
ACCCAGATTACCAAGAAAAGTATCAAGAGTTACTTGAAAGAGAGGACTTTTTTCCAGATTATGAAGAAAATGGAACAGATTTATCAGGGGCTGGTGACCCGCCACGTCTATCCCAAATTTCTCTTACATGGGAGCTCGCCTGTGTAATTACCTGTCCCATCATCTGACAATTAGTCCACAGAGTGGCAACTTCCGCCAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(2), mmu-miR-32-5p(1), mmu-miR-26a-5p(1), mmu-miR-26b-5p(1), mmu-miR-676-3p(1), mmu-miR-382-5p(1), mmu-miR-297a-5p(1), mmu-miR-129-5p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GGGCTGGTGACCCGCCACGTCTATCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAIP1_725_ORF_1
1.0453
0.038339781
0.912467259
765
ORF sequence:
ATGGGAGCTCGCCTGTGTAATTACCTGTCCCATCATCTGACAATTAGTCCACAGAGTGGCAACTTCCGCCAATTGCTACTTCAAAGGTGCAGGACGGAGTATGAAGCTAAAGACCAAGCTGCAAAAGGGGATGAAGTGACTCGAAAACGATTTCATGCATTTGTTCTGTTTCTGGGAGAACTATATCTTAACCTGGAGATTAAAGGAACAAATGGACAAGTTACAAGAGCAGATATTCTTCAGGTTGGTCTTCGGGAACTGCTGAATGCTCTGTTTTCTAATCCTATGGATGACAACTTAATTTGTGCAGTAAAATTGCTAAAGTTGACAGGATCAGTTTTAGAAGATACTTGGAAGGAAAAGGGGAAAACTGATATGGAAGAAATAATTCAGAGAATTGAAAATGTTGTCCTAGATGCAAACTGCAGCAGAGATGTAAAACAGATGCTCTTGAAGCTTGTTGAACTTCGATCAAGTAACTGGGGTAGGGTCCATGCAACTTCAACATACAGAGAAGCTACCCCTGAAAATGACCCTAATTACTTCATGAATGAACCAACATTTTATACATCTGATGGTGTTCCTTTCACTGCAGCGGACCCAGATTACCAAGAAAAGTATCAAGAGTTACTTGAAAGAGAGGACTTTTTTCCAGATTATGAAGAAAATGGAACAGATTTATCAGGGGCTGGTGACCCGCCACGTCTATCCCAAATTTCTCTTACATGGGAGCTCGCCTGTGTAATTACCTGTCCCATCATCTGA
Peptide sequence:
MGARLCNYLSHHLTISPQSGNFRQLLLQRCRTEYEAKDQAAKGDEVTRKRFHAFVLFLGELYLNLEIKGTNGQVTRADILQVGLRELLNALFSNPMDDNLICAVKLLKLTGSVLEDTWKEKGKTDMEEIIQRIENVVLDANCSRDVKQMLLKLVELRSSNWGRVHATSTYREATPENDPNYFMNEPTFYTSDGVPFTAADPDYQEKYQELLEREDFFPDYEENGTDLSGAGDPPRLSQISLTWELACVITCPII
IRESfinder result
IRESfinder score
0.694257427
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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